Initial commit into git.
Small fix.
Rename Topology to Topography to be consistent with POP.
Added various documentation, small applications and some scripts.
Updated web description.
Added package info and various fixes to the JavaDoc.
Added (empty) usersguide.
Updated build file to include docs and HISTORY in zip.
Removed the (work in progress) TopographyOptimizer.
Initial version of user guide.
Added userguide. Fixed some small cli issues in the applications.